Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001977.1 Kokia drynarioides strain JFW-HI SEQ_113823, whole genome shotgun sequence

Parameters: 2 7 7 80 10 50 1000

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000

Length: 2819
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35


Found at i:723 original size:21 final size:20

Alignment explanation


    Indices: 695--733  Score: 51
    Period size: 21  Copynumber: 1.9  Consensus size: 20

        685 CCAATACTTA

                     *          
        695 TAAATTTAGGTTTGGATTTC
          1 TAAATTTAGATTTGGATTTC

                     *         
        715 TAAACTTTATATTTGGATT
          1 TAAA-TTTAGATTTGGATT

        734 ATGTTATTAT


Statistics
Matches: 16,  Mismatches: 2, Indels: 1
        0.84            0.11        0.05

Matches are distributed among these distances:
  20    4  0.25
  21   12  0.75

ACGTcount: A:0.28, C:0.05, G:0.15, T:0.51


Consensus pattern (20 bp):   
TAAATTTAGATTTGGATTTC

Found at i:1325 original size:2 final size:2

Alignment explanation


    Indices: 1314--1352  Score: 71
    Period size: 2  Copynumber: 20.0  Consensus size: 2

       1304 TTAAGGGGGT

                                                                       
       1314 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA

       1353 AGGGGAAAAA


Statistics
Matches: 36,  Mismatches: 0, Indels: 2
        0.95            0.00        0.05

Matches are distributed among these distances:
   1    1  0.03
   2   35  0.97

ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49


Consensus pattern (2 bp):   
TA

Done.